Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 150 of 444
Found at i:40638382 original size:46 final size:46
Alignment explanation
Indices: 40638195--40638382 Score: 142
Period size: 46 Copynumber: 4.1 Consensus size: 46
40638185 ACCCGCCCTA
* ** * *
40638195 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
40638240 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
40638288 A-CGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
40638332 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
40638378 AGTGA
1 AGTGA
40638383 CATGTCACTT
Statistics
Matches: 114, Mismatches: 13, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
44 10 0.09
45 31 0.27
46 63 0.55
47 5 0.04
48 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:40644917 original size:46 final size:44
Alignment explanation
Indices: 40644867--40644989 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 44
40644857 GATGAGTGCT
* * *
40644867 AGTGTAAGACATGTCTAGGACATGCATCAGCCT-TGAGACGTAAGTC
1 AGTGTAAGACATGTCTGGGACATGCATC-GACTGCGAGACGT--GTC
*
40644913 AGTGTAAGACATGTCTGGGACATGCATCGACTGCGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACTGCGAGACGTGTC
*
40644957 AGTGTAAGACCATGTCTGGGACACGGCATCGAC
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGAC
40644990 ACAAATATGC
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 12 0.17
45 16 0.23
46 41 0.59
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTGCGAGACGTGTC
Found at i:40646946 original size:27 final size:28
Alignment explanation
Indices: 40646890--40646959 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
40646880 AAATTTGTAC
40646890 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
40646918 AGCACTAAGTGTGCTAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
40646945 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
40646960 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:40650527 original size:26 final size:26
Alignment explanation
Indices: 40650477--40650549 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
40650467 TTTGCCACAT
* *
40650477 ATACTGATACTGGCAGCTCAT-CTGTG
1 ATACTGTTACTGGCAGCT-TTGCTGTG
*
40650503 TTACTGTTACTGGCAGCTTTGCTGTG
1 ATACTGTTACTGGCAGCTTTGCTGTG
* * *
40650529 ATATTATTATTGGCAGCTTTG
1 ATACTGTTACTGGCAGCTTTG
40650550 TTACGATATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 1 0.03
26 38 0.97
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGTG
Found at i:40651484 original size:16 final size:17
Alignment explanation
Indices: 40651463--40651494 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
40651453 TGGTTAGAGT
40651463 AAACTG-AAACTGTAGG
1 AAACTGAAAACTGTAGG
40651479 AAACTGAAAACTGTAG
1 AAACTGAAAACTGTAG
40651495 TGAGACCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (17 bp):
AAACTGAAAACTGTAGG
Found at i:40665425 original size:49 final size:49
Alignment explanation
Indices: 40665353--40665526 Score: 249
Period size: 49 Copynumber: 3.5 Consensus size: 49
40665343 TGAGGTTACG
* *
40665353 TGTGTAGCACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
* * ** * *
40665402 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
* *
40665452 TGTGTAGTACTAAGTGCAGGCTACTCCGTGTACCGGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
40665501 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
40665527 TGCGTACTAG
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
49 67 0.62
50 41 0.38
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
Found at i:40665521 original size:99 final size:99
Alignment explanation
Indices: 40665345--40665526 Score: 319
Period size: 99 Copynumber: 1.8 Consensus size: 99
40665335 ATCTATTGTG
* *
40665345 AGGTTACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCATGTGTAGT
1 AGGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
40665410 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
* * *
40665444 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTCCGTGTACCGGATTATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
40665509 ACTAAGTGCAGGCTACTA
66 ACTAAGTGCAGGCTACTA
40665527 TGCGTACTAG
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 78 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.30
Consensus pattern (99 bp):
AGGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
Found at i:40667617 original size:31 final size:31
Alignment explanation
Indices: 40667579--40667641 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
40667569 CTTTTCACAC
*
40667579 TTCATATTTCATAACACTGGGCTGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
**
40667610 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
40667641 T
1 T
40667642 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:40667969 original size:50 final size:48
Alignment explanation
Indices: 40667836--40667981 Score: 183
Period size: 50 Copynumber: 3.0 Consensus size: 48
40667826 CTTTTATCAT
*
40667836 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAT-AGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
40667884 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAA-GCCCTTT-TA
*
40667934 ATAATTGGGGCATAAGCCC-TTTACCATAACT-GGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA--ATAACTGGGGCATAAGCCCTTTTA
40667982 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 4, Indels: 12
0.85 0.04 0.12
Matches are distributed among these distances:
47 23 0.26
48 14 0.16
49 18 0.20
50 27 0.31
51 6 0.07
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:40667982 original size:25 final size:24
Alignment explanation
Indices: 40667836--40667981 Score: 183
Period size: 24 Copynumber: 6.0 Consensus size: 24
40667826 CTTTTATCAT
*
40667836 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
40667861 ATAACTGGGGCAT-AGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
40667884 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
40667908 ATAACTGGGGCATAAGGCCCTTTATC
1 ATAACTGGGGCATAA-GCCCTTT-TA
*
40667934 ATAATTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
40667957 CCATAACT-GGGCATAAGCCCTTTTA
1 --ATAACTGGGGCATAAGCCCTTTTA
40667982 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
23 20 0.18
24 47 0.43
25 28 0.25
26 15 0.14
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:40668049 original size:18 final size:18
Alignment explanation
Indices: 40668026--40668072 Score: 76
Period size: 20 Copynumber: 2.5 Consensus size: 18
40668016 GCATTTATGA
40668026 ATACATCATGTGCATATC
1 ATACATCATGTGCATATC
40668044 ATACATATCATGTGCATATC
1 ATAC--ATCATGTGCATATC
40668064 ATACATCAT
1 ATACATCAT
40668073 TTTTACCTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.33
20 18 0.67
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (18 bp):
ATACATCATGTGCATATC
Found at i:40668055 original size:20 final size:20
Alignment explanation
Indices: 40668030--40668069 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
40668020 TTATGAATAC
40668030 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
40668050 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
40668070 CATTTTTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:40668098 original size:25 final size:25
Alignment explanation
Indices: 40668069--40668125 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
40668059 ATATCATACA
*
40668069 TCATTTTTACCTAGGGGCATAA-TGG
1 TCATTTTTACCTAGGGGCA-AAGCGG
40668094 TCATTTTTACCTAGGGGCAAAGCGG
1 TCATTTTTACCTAGGGGCAAAGCGG
40668119 TCATTTT
1 TCATTTT
40668126 CATATTATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (25 bp):
TCATTTTTACCTAGGGGCAAAGCGG
Found at i:40672545 original size:26 final size:26
Alignment explanation
Indices: 40672516--40672578 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
40672506 TATATACTGA
40672516 TACTGGCAGCTCTACTGC-ATTACTAT
1 TACTGGCAGCTCTACTGCGA-TACTAT
* * * *
40672542 TACTGGTAGCTTTGCTGCGATATTAT
1 TACTGGCAGCTCTACTGCGATACTAT
*
40672568 TAATGGCAGCT
1 TACTGGCAGCT
40672579 TTGCTGTGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 29 0.97
27 1 0.03
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (26 bp):
TACTGGCAGCTCTACTGCGATACTAT
Found at i:40672579 original size:26 final size:26
Alignment explanation
Indices: 40672539--40672591 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
40672529 ACTGCATTAC
* *
40672539 TATTACTGGTAGCTTTGCTGCGATAT
1 TATTAATGGCAGCTTTGCTGCGATAT
*
40672565 TATTAATGGCAGCTTTGCTGTGATAT
1 TATTAATGGCAGCTTTGCTGCGATAT
40672591 T
1 T
40672592 GGTGTGTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.43
Consensus pattern (26 bp):
TATTAATGGCAGCTTTGCTGCGATAT
Found at i:40674696 original size:42 final size:43
Alignment explanation
Indices: 40674595--40674706 Score: 111
Period size: 42 Copynumber: 2.6 Consensus size: 43
40674585 CAATGCCAAC
* * ***
40674595 GTCCCGGACATGGTCTTACATGTAACTCAATATCGATGCCTTT
1 GTCCCAGACATGGTCTTACATGTAAATCAATATCGATGCCGAG
* * *
40674638 GTCCTAGACAGGGTCTTACATG-AAATCAGATAT-GATGTCGAG
1 GTCCCAGACATGGTCTTACATGTAAATCA-ATATCGATGCCGAG
* *
40674680 GTCCCAGACATGGTCTTATACGTAAAT
1 GTCCCAGACATGGTCTTACATGTAAAT
40674707 TTCAATCGAC
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 28 0.51
43 27 0.49
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGTAAATCAATATCGATGCCGAG
Found at i:40676531 original size:46 final size:46
Alignment explanation
Indices: 40676481--40676656 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
40676471 TGGTTGAGCA
40676481 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
40676527 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
40676572 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
40676620 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40676657 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:40676637 original size:93 final size:93
Alignment explanation
Indices: 40676478--40676648 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
40676468 GGATGGTTGA
* *
40676478 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40676543 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
40676571 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40676636 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40676649 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40679645 original size:15 final size:15
Alignment explanation
Indices: 40679606--40679684 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
40679596 GTATCTTGGG
*
40679606 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
40679621 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
40679636 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
40679650 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
40679665 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
40679679 TTTCTT
1 TTTCTT
40679685 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:40679669 original size:29 final size:29
Alignment explanation
Indices: 40679597--40679683 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
40679587 CATAGTATCG
* * * *
40679597 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
40679627 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
40679656 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
40679684 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:40682102 original size:46 final size:46
Alignment explanation
Indices: 40682052--40682227 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
40682042 TGGTTGAGCA
40682052 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
40682098 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
40682143 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
40682191 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40682228 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:40682208 original size:93 final size:93
Alignment explanation
Indices: 40682049--40682219 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
40682039 GGATGGTTGA
* *
40682049 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40682114 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
40682142 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40682207 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40682220 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40688193 original size:46 final size:45
Alignment explanation
Indices: 40688140--40688315 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
40688130 TATTTGGGCA
40688140 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
40688186 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
40688233 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
40688279 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40688316 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:40688295 original size:93 final size:93
Alignment explanation
Indices: 40688136--40688307 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
40688126 AGGATATTTG
* *
40688136 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
40688201 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
40688229 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
40688294 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
40688308 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:40699079 original size:46 final size:46
Alignment explanation
Indices: 40699026--40699154 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
40699016 GATTTTGGCA
*
40699026 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
40699072 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
40699118 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40699155 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:40702115 original size:14 final size:15
Alignment explanation
Indices: 40702070--40702117 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
40702060 GTATCTTGGG
40702070 TTTCTTTA-TCTGGA
1 TTTCTTTATTCTGGA
*
40702084 TCTC-TTATTCTGGA
1 TTTCTTTATTCTGGA
*
40702098 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
40702112 TTTCTT
1 TTTCTT
40702118 GTTATCTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 3 0.10
14 20 0.69
15 6 0.21
ACGTcount: A:0.10, C:0.17, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:40704542 original size:46 final size:45
Alignment explanation
Indices: 40704489--40704664 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
40704479 TATTTGGGCA
40704489 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
40704535 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
40704582 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
40704628 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40704665 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:40704644 original size:93 final size:93
Alignment explanation
Indices: 40704485--40704656 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
40704475 AGGATATTTG
* *
40704485 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
40704550 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
40704578 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
40704643 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
40704657 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:40715422 original size:46 final size:45
Alignment explanation
Indices: 40715369--40715544 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
40715359 TATTTGGGCA
40715369 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
40715415 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
40715462 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
40715508 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40715545 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:40715524 original size:93 final size:93
Alignment explanation
Indices: 40715365--40715536 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
40715355 AGGATATTTG
* *
40715365 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
40715430 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
40715458 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
40715523 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
40715537 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:40719224 original size:30 final size:30
Alignment explanation
Indices: 40719190--40719250 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
40719180 TTCCCGAGCC
*
40719190 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGACAAAAGTGTAAATATGCAAAAGTT
* * *
40719220 TAGGGACAAAATTGTAATTTTGCAAAAGTT
1 TAGGGACAAAAGTGTAAATATGCAAAAGTT
40719250 T
1 T
40719251 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGACAAAAGTGTAAATATGCAAAAGTT
Found at i:40723281 original size:28 final size:27
Alignment explanation
Indices: 40723218--40723287 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
40723208 ATAGTGAGTC
40723218 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
40723245 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
40723273 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40723288 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:40730943 original size:28 final size:28
Alignment explanation
Indices: 40730911--40731009 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
40730901 GCAATAAGCC
*
40730911 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
40730939 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
40730967 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
40730996 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40731010 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:40738604 original size:28 final size:28
Alignment explanation
Indices: 40738572--40738670 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
40738562 GCAATAAGCC
*
40738572 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
40738600 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
40738628 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
40738657 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40738671 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:40740840 original size:28 final size:27
Alignment explanation
Indices: 40740774--40740843 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
40740764 ATAGTGAGTC
*
40740774 CGCACACTTAGTGCTATATAATCAATT
1 CGCACACTTAGTGCTATATAATCAACT
*
40740801 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
40740829 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40740844 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:40749221 original size:79 final size:82
Alignment explanation
Indices: 40749081--40749265 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
40749071 TCGAATGATG
* * *
40749081 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
40749145 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
40749161 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
40749223 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
40749241 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40749266 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:40749273 original size:40 final size:40
Alignment explanation
Indices: 40749082--40749273 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
40749072 CGAATGATGT
* * * * *
40749082 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
40749122 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
40749162 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
40749201 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
40749241 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
40749274 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:40749296 original size:79 final size:79
Alignment explanation
Indices: 40749081--40749298 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
40749071 TCGAATGATG
* * * * ** *
40749081 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
40749144 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
40749161 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
40749226 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
40749241 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
40749299 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:40750796 original size:40 final size:40
Alignment explanation
Indices: 40750741--40750988 Score: 331
Period size: 40 Copynumber: 6.2 Consensus size: 40
40750731 TGAATGATAC
* **
40750741 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTG-TTATAT
*
40750781 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
*
40750821 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
40750861 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
* * *** *
40750901 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
* * *
40750941 CCGGGTTAAGACCCGAAGGCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCTAGTTGTTATAT
40750981 CC-GGCTAA
1 CCGGGCTAA
40750989 ATTCCGAAGA
Statistics
Matches: 186, Mismatches: 20, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
39 5 0.03
40 176 0.95
41 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
Found at i:40753341 original size:40 final size:38
Alignment explanation
Indices: 40753284--40753422 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 38
40753274 TCGAATGATG
* * *
40753284 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGACTAA-TCCCGAAGGCTTTGTGC-AAGTTACTAAA
* * *
40753324 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGACTA--ATCCCGAAGGC-TTTGTGCAAGTTACTAAA
*
40753364 TCCGGGCTAATCCCGAAGGCTTTGTGCAAGTTACTAAA
1 TCCGGACTAATCCCGAAGGCTTTGTGCAAGTTACTAAA
* **
40753402 CCCGGGTTAAGTCCCGAAGGC
1 TCCGGACTAA-TCCCGAAGGC
40753423 ATTCGTGAAG
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
38 25 0.30
39 18 0.22
40 31 0.38
41 7 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (38 bp):
TCCGGACTAATCCCGAAGGCTTTGTGCAAGTTACTAAA
Found at i:40753407 original size:38 final size:39
Alignment explanation
Indices: 40753284--40753466 Score: 158
Period size: 39 Copynumber: 4.6 Consensus size: 39
40753274 TCGAATGATG
* *
40753284 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGC-AAGTTACTAAA
* * * * *
40753324 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCAAGTTACTAAA
40753364 TCCGGGCTAA-TCCCGAAGGCTTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCAAGTTACTAAA
* * * **
40753402 CCCGGGTTAAGTCCCGAAGGCATTCGTG-AAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCAAGTTACTA-AA
**
40753442 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
40753467 AGCGAGTCGT
Statistics
Matches: 116, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
38 24 0.21
39 46 0.40
40 39 0.34
41 7 0.06
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCAAGTTACTAAA
Found at i:40762146 original size:40 final size:40
Alignment explanation
Indices: 40762091--40762258 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
40762081 TGAATGATAC
* *
40762091 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
40762131 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
40762171 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
40762211 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
40762251 CC-GGCTAA
1 CCGGGCTAA
40762259 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:40770264 original size:41 final size:42
Alignment explanation
Indices: 40770207--40770285 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 42
40770197 GTGTGAATTT
* *
40770207 GTGTAAGACCATGTCTGGGACATTGGCATTG-TATATGTCTC
1 GTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGTCTC
*
40770248 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATATG
1 GTGTAAGACCATGTCTGGGACAGTGGCATCGATATATG
40770286 ATAACATGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 28 0.82
42 6 0.18
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGTCTC
Found at i:40774181 original size:46 final size:47
Alignment explanation
Indices: 40774119--40774331 Score: 297
Period size: 46 Copynumber: 4.6 Consensus size: 47
40774109 GATGCCATAA
* *
40774119 TATCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTTCATGTCATGTTGCCATGG
* **
40774165 TATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTTCATGTCATGTTGCCATGG
* **
40774212 TATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACATTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTTCATGTCATGTTGCCATGG
* * *
40774258 TATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTTCATGTCATGTTGCCATGG
*
40774304 TATCTTTCAACCATGGTCTTACACATTT
1 TATCTTTCAACCATGGTCTTACTCATTT
40774332 CATTTCAGAG
Statistics
Matches: 152, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
46 110 0.72
47 42 0.28
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (47 bp):
TATCTTTCAACCATGGTCTTACTCATTTTCATGTCATGTTGCCATGG
Found at i:40774270 original size:93 final size:92
Alignment explanation
Indices: 40774119--40774334 Score: 299
Period size: 93 Copynumber: 2.3 Consensus size: 92
40774109 GATGCCATAA
* * **
40774119 TATCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTC
1 TATCTTTCAACCATGGTCTTACTCA-TTTCATGTCACATTGCCATGGTATCTTTCAACCATGGTC
** * * *
40774183 TTATTCATTTTCCCGTCATGTTGCCATGG
65 TTACACA-TTTCACATCAGGTTGCCATGG
*
40774212 TATCTTTCAACCATGGTCTTATTCATTTCATGTCACATTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTACTCATTTCATGTCACATTGCCATGGTATCTTTCAACCATGGTCT
*
40774277 TACACATTTCATATCAGGTTGCCATGG
66 TACACATTTCACATCAGGTTGCCATGG
*
40774304 TATCTTTCAACCATGGTCTTACACATTTCAT
1 TATCTTTCAACCATGGTCTTACTCATTTCAT
40774335 TTCAGAGAGC
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
92 50 0.46
93 59 0.54
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (92 bp):
TATCTTTCAACCATGGTCTTACTCATTTCATGTCACATTGCCATGGTATCTTTCAACCATGGTCT
TACACATTTCACATCAGGTTGCCATGG
Found at i:40776239 original size:17 final size:18
Alignment explanation
Indices: 40776203--40776244 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
40776193 CACCTTTAAT
40776203 TTTTCCTTTTCTTCTTTC
1 TTTTCCTTTTCTTCTTTC
40776221 TTTTCTCTTTT-TT-TTTC
1 TTTTC-CTTTTCTTCTTTC
40776238 -TTTCCTT
1 TTTTCCTT
40776245 CCCCTCCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 3 0.13
16 4 0.17
17 4 0.17
18 7 0.30
19 5 0.22
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTCCTTTTCTTCTTTC
Found at i:40776502 original size:18 final size:19
Alignment explanation
Indices: 40776453--40776502 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
40776443 TATAATATAA
40776453 TTATTTAATTAATAAATATC
1 TTATTTAA-TAATAAATATC
40776473 TT-TTATAAAATAATAAATAT-
1 TTATT-T--AATAATAAATATC
40776493 TTATTTAATA
1 TTATTTAATA
40776503 TCTAATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 4 0.15
19 2 0.08
20 6 0.23
21 12 0.46
22 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTTAATAATAAATATC
Found at i:40789353 original size:40 final size:40
Alignment explanation
Indices: 40789308--40789495 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
40789298 ATAACCACAA
* * *
40789308 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAATTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
40789348 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
40789388 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * *
40789428 ACACAAATGCCTTCGAGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * *
40789468 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
40789496 GTATCATTCA
Statistics
Matches: 131, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 129 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:40789393 original size:80 final size:79
Alignment explanation
Indices: 40789288--40789499 Score: 291
Period size: 80 Copynumber: 2.7 Consensus size: 79
40789278 TCTTCGGAAT
* * * *
40789288 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAATTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCACAC
*
40789352 AAATGCCTTCGGGTC
65 AAATGCCTTCGAGTC
* *
40789367 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCACAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCACAC
40789432 AAATGCCTTCGAGTC
65 AAATGCCTTCGAGTC
* * * *
40789447 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
40789500 CATTCAATTG
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
79 5 0.04
80 111 0.95
81 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCACACA
AATGCCTTCGAGTC
Found at i:40790600 original size:42 final size:42
Alignment explanation
Indices: 40790537--40790667 Score: 172
Period size: 42 Copynumber: 3.1 Consensus size: 42
40790527 TCAATTTGTT
* * *
40790537 ATTTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATG
1 ATTT-CATGTAAGACCCTGTCTGGGACAGTGGCATCATATATG
* *
40790580 ATTTCATGTAAGACCCTGTCTAGGACAGTGGCAACATATATG
1 ATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCATATATG
* * *
40790622 ATTTCGTATAAGACCCTGTCTGGGACAGTGGCATCAATATTTG
1 ATTTCATGTAAGACCCTGTCTGGGACAGTGGCATC-ATATATG
40790665 ATT
1 ATT
40790668 ACTTATAAGG
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 64 0.83
43 13 0.17
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (42 bp):
ATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCATATATG
Found at i:40790688 original size:43 final size:42
Alignment explanation
Indices: 40790546--40790689 Score: 119
Period size: 42 Copynumber: 3.4 Consensus size: 42
40790536 TATTTACATG
* * * * * * * *
40790546 TAAGACCATGTCTGGGACATTGGCATCGTATATGATTTCATG
1 TAAGACCCTGCCTGGGACAGTGGCAACATATATGATTACGTA
* * *
40790588 TAAGACCCTGTCTAGGACAGTGGCAACATATATGATTTCGTA
1 TAAGACCCTGCCTGGGACAGTGGCAACATATATGATTACGTA
* * * *
40790630 TAAGACCCTGTCTGGGACAGTGGCATCAATATTTGATTACTTA
1 TAAGACCCTGCCTGGGACAGTGGCAAC-ATATATGATTACGTA
*
40790673 TAAGGCCAC-GCCTGGGA
1 TAAGACC-CTGCCTGGGA
40790690 TATTGGCTTT
Statistics
Matches: 86, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 60 0.70
43 25 0.29
44 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (42 bp):
TAAGACCCTGCCTGGGACAGTGGCAACATATATGATTACGTA
Found at i:40795844 original size:8 final size:8
Alignment explanation
Indices: 40795828--40795862 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
40795818 CATGCTGAAG
40795828 TTTCAGCT
1 TTTCAGCT
*
40795836 TTTCGGCT
1 TTTCAGCT
40795844 TTTCAGCT
1 TTTCAGCT
*
40795852 TTTCGGCT
1 TTTCAGCT
40795860 TTT
1 TTT
40795863 AACAGTTACG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.06, C:0.23, G:0.17, T:0.54
Consensus pattern (8 bp):
TTTCAGCT
Found at i:40795849 original size:16 final size:16
Alignment explanation
Indices: 40795828--40795862 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
40795818 CATGCTGAAG
40795828 TTTCAGCTTTTCGGCT
1 TTTCAGCTTTTCGGCT
40795844 TTTCAGCTTTTCGGCT
1 TTTCAGCTTTTCGGCT
40795860 TTT
1 TTT
40795863 AACAGTTACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.06, C:0.23, G:0.17, T:0.54
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCT
Found at i:40807122 original size:40 final size:40
Alignment explanation
Indices: 40807049--40807256 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
40807039 CAATTGAATG
* * ** *
40807049 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
40807089 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* * **
40807129 ACATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
40807169 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
40807209 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
40807249 ATATCCGG
1 ATATCCGG
40807257 TTGTATTCCG
Statistics
Matches: 137, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
39 4 0.03
40 129 0.94
41 4 0.03
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:40807199 original size:80 final size:80
Alignment explanation
Indices: 40807093--40807256 Score: 206
Period size: 80 Copynumber: 2.0 Consensus size: 80
40807083 GTAATTATAC
* *
40807093 CCGGGTTAAGACCCGAAGGCCATTGTGCTAGT-GACCACATCCGGGCTAAGACCCAAAGGCATTC
1 CCGGGCTAAGACCCGAAGGCCATTGTGCAAGTCGACC-CATCCGGGCTAAGACCCAAAGGCATTC
*
40807157 GTGCAAGTTGTTAAAT
65 GTGCAAGTGGTTAAAT
* ** * *
40807173 CCGGGCTAATACCCGAAGG-CATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGGCCA-TTGTGCAAGTCGACCCATCCGGGCTAAGACCCAAAGGCATTC
* *
40807237 GTGCATGTGGTTATAT
65 GTGCAAGTGGTTAAAT
40807253 CCGG
1 CCGG
40807257 TTGTATTCCG
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
79 2 0.03
80 68 0.94
81 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCCATTGTGCAAGTCGACCCATCCGGGCTAAGACCCAAAGGCATTCG
TGCAAGTGGTTAAAT
Found at i:40812057 original size:42 final size:44
Alignment explanation
Indices: 40811944--40812101 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 44
40811934 ATGTCTTATT
* * *
40811944 GTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGTGATTTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTTAC
*
40811988 TTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTT-C
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTTAC
* * * * * *
40812030 GTGTATGACCCTGTCTGGGACAATGGCATTGATATTTCA-TTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTTAC
* ** *
40812073 ATGTAAGACCACATCTAGGACATTGGCAT
1 GTGTAAGACCATGTCTGGGACATTGGCAT
40812102 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
42 29 0.31
43 36 0.38
44 29 0.31
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (44 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTTAC
Found at i:40812100 original size:85 final size:86
Alignment explanation
Indices: 40811944--40812106 Score: 204
Period size: 85 Copynumber: 1.9 Consensus size: 86
40811934 ATGTCTTATT
** * * ** *
40811944 GTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGTGATTTACTTGTAAGACCATGTCTGGGAC
1 GTGTAAGACCATGTCTGGGACAATGGCATCGATTTGTCATTTACATGTAAGACCACATCTAGGAC
40812009 ATTGGCATCGTATATGATTTC
66 ATTGGCATCGTATATGATTTC
* * *
40812030 GTGTATGACCCTGTCTGGGACAATGGCATTGATATT-TCA-TTACATGTAAGACCACATCTAGGA
1 GTGTAAGACCATGTCTGGGACAATGGCATCGAT-TTGTCATTTACATGTAAGACCACATCTAGGA
*
40812093 CATTGGCATTGTAT
65 CATTGGCATCGTAT
40812107 GAGCTTATGA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 33 0.51
86 30 0.46
87 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (86 bp):
GTGTAAGACCATGTCTGGGACAATGGCATCGATTTGTCATTTACATGTAAGACCACATCTAGGAC
ATTGGCATCGTATATGATTTC
Found at i:40816506 original size:2 final size:2
Alignment explanation
Indices: 40816499--40816523 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
40816489 GAGACTAGTC
40816499 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
40816524 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:40818559 original size:30 final size:30
Alignment explanation
Indices: 40818525--40818585 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
40818515 TCCTTAACTC
40818525 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
40818555 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
40818585 A
1 A
40818586 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:40820294 original size:53 final size:54
Alignment explanation
Indices: 40820140--40820306 Score: 214
Period size: 55 Copynumber: 3.1 Consensus size: 54
40820130 GTTTCATAGG
* *
40820140 CATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGA
1 CATGGCATTGATAAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
* * *
40820194 CATGGCATTGATGAGTTACTATAAGGCAAAGG-T-CTCATGTAAGACCATGCCAAGG
1 CATGGCATTGATAAGTT-CTATAAGGC-AAGGATAC-CATGTAAGACCATGTCAAGA
* * *
40820249 CATGGCATTGGTCAGTTC-ATAAGGCAAGGATACCACGTAAGACCATGTCAAGA
1 CATGGCATTGATAAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
40820302 CATGG
1 CATGG
40820307 TAATGGTAAG
Statistics
Matches: 98, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
52 4 0.04
53 30 0.31
54 18 0.18
55 42 0.43
56 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (54 bp):
CATGGCATTGATAAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
Found at i:40823430 original size:28 final size:28
Alignment explanation
Indices: 40823398--40823467 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
40823388 AATGAGATTG
*
40823398 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
40823426 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
40823454 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40823468 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:40823915 original size:17 final size:17
Alignment explanation
Indices: 40823893--40823929 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
40823883 GTGTAATGCT
40823893 TATGACTTACTGAGTTA
1 TATGACTTACTGAGTTA
40823910 TATGACTTACTGAGTTA
1 TATGACTTACTGAGTTA
40823927 TAT
1 TAT
40823930 ACTCATTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (17 bp):
TATGACTTACTGAGTTA
Found at i:40829545 original size:46 final size:46
Alignment explanation
Indices: 40829490--40829611 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 46
40829480 GGTTGAGCAT
* *
40829490 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGC
* * **
40829536 TCGAACTCGTTGAGTTGAGTCCGAATTCATTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGC
* *
40829582 CCGAGCTCATTGAGTTGAGTCCGAGTTCAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCAC
40829612 TTAGGGGCGG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGC
Found at i:40829876 original size:19 final size:20
Alignment explanation
Indices: 40829839--40829876 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40829829 ATAAGGTGGT
40829839 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
40829859 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
40829877 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:40833437 original size:2 final size:2
Alignment explanation
Indices: 40833430--40833457 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
40833420 CACATTCGGC
40833430 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
40833458 ATGTATGCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:40834040 original size:28 final size:28
Alignment explanation
Indices: 40834008--40834077 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
40833998 AATGAGATTG
* *
40834008 GCACTACGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
40834036 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
40834064 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40834078 GACTTACTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:40842389 original size:28 final size:28
Alignment explanation
Indices: 40842349--40842418 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
40842339 ATAGTAAGTC
*
40842349 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
40842377 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
40842405 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40842419 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:40849599 original size:37 final size:37
Alignment explanation
Indices: 40849540--40849648 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
40849530 AGCTCAGACG
* * *
40849540 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
40849577 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
40849614 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
40849649 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:40849849 original size:48 final size:48
Alignment explanation
Indices: 40849795--40849929 Score: 225
Period size: 48 Copynumber: 2.8 Consensus size: 48
40849785 GCACATCGCC
*
40849795 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTATCACATATACATACCTCA
* *
40849843 TACATATTTCGCACTAGCCATTCGGCTTTATCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTATCACATATACATACCTCA
* *
40849891 TACATATTTCACATTAGCCATTCGGCCTTATCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTATCACATATA
40849930 TGCATGTTCA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTATCACATATACATACCTCA
Found at i:40849965 original size:47 final size:47
Alignment explanation
Indices: 40849899--40850092 Score: 325
Period size: 47 Copynumber: 4.1 Consensus size: 47
40849889 CATACATATT
* * * *
40849899 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
40849946 TCATATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
40849993 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
40850040 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
40850087 TCACAT
1 TCACAT
40850093 AAAATCCTAA
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 139 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:40849996 original size:25 final size:25
Alignment explanation
Indices: 40849967--40850044 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 25
40849957 ATTCGGCCTT
40849967 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
* *
40849992 AT--CACAT-TGGCCAT--TCGGCCTT-
1 ATCACACATAT-G-CATGCTC-ACATTC
40850014 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
40850039 ATCACA
1 ATCACA
40850045 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:40850019 original size:22 final size:22
Alignment explanation
Indices: 40849992--40850067 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
40849982 GCTCACATTC
40849992 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
40850014 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
40850038 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
40850061 ATCACAT
1 ATCACAT
40850068 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:40853705 original size:40 final size:40
Alignment explanation
Indices: 40853661--40854005 Score: 458
Period size: 40 Copynumber: 8.6 Consensus size: 40
40853651 CCAGCATGAT
* * * * * *
40853661 TGCTCTTCGGGACCTAGCCTGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
40853701 TGCTCTTCGGG-GTTCAGCACAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTT-AGCCCGGATACATCACTAGCACGAA
* * *
40853741 TGCTCTTTGGAACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
40853781 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
40853821 TGCTTTTCGGGACTTAGCCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
40853861 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
40853901 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
40853941 TGCTCTTCGGGACTTATCCCGGTTACATCACTAGAACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
40853981 TGCTCTTCGAGACATAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATA
40854006 TATATAACTC
Statistics
Matches: 267, Mismatches: 36, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
39 1 0.00
40 264 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:40855341 original size:37 final size:37
Alignment explanation
Indices: 40855282--40855427 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
40855272 AGCTCAGACG
* * *
40855282 AAATCTCAACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
40855319 AAATCTCCACACGTAGTCATCGGGTCTTACTCGAAAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
40855356 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
40855393 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
40855428 ATATATTTCC
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:40855628 original size:48 final size:48
Alignment explanation
Indices: 40855574--40855708 Score: 225
Period size: 48 Copynumber: 2.8 Consensus size: 48
40855564 GCAGATCGCC
40855574 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
* *
40855622 TACATATTTCGCACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
* * *
40855670 TACATATTTCACATTAGCCATTCGGCCTTATCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
40855709 TGCATGTTCA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
Found at i:40855743 original size:47 final size:47
Alignment explanation
Indices: 40855678--40855871 Score: 325
Period size: 47 Copynumber: 4.1 Consensus size: 47
40855668 CATACATATT
* * * *
40855678 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
40855725 TCATATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
40855772 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
40855819 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
40855866 TCACAT
1 TCACAT
40855872 AAAATCCTAA
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 139 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:40855775 original size:25 final size:25
Alignment explanation
Indices: 40855746--40855823 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 25
40855736 ATTCGGCCTT
40855746 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
* *
40855771 AT--CACAT-TGGCCAT--TCGGCCTT-
1 ATCACACATAT-G-CATGCTC-ACATTC
40855793 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
40855818 ATCACA
1 ATCACA
40855824 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:40855798 original size:22 final size:22
Alignment explanation
Indices: 40855771--40855846 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
40855761 GCTCACATTC
40855771 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
40855793 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
40855817 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
40855840 ATCACAT
1 ATCACAT
40855847 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:40859873 original size:28 final size:28
Alignment explanation
Indices: 40859833--40859902 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
40859823 ATAGTAAGTC
*
40859833 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
40859861 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
40859889 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40859903 CAATCTCGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:40870640 original size:40 final size:40
Alignment explanation
Indices: 40870603--40870788 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 40
40870593 GCTACTCGTT
*
40870603 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
40870643 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
40870683 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
40870723 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
40870764 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40870789 CATCATTCGA
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 118 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:40873674 original size:40 final size:40
Alignment explanation
Indices: 40873440--40873685 Score: 325
Period size: 40 Copynumber: 6.2 Consensus size: 40
40873430 TCTTCGGAAT
* ** *
40873440 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
40873479 TTAACTCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
40873519 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
40873559 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
40873599 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCAGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
40873639 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCAGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
40873679 TTAGCCC
1 TTAGCCC
40873686 AGGTATCATT
Statistics
Matches: 183, Mismatches: 22, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
39 3 0.02
40 179 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:40879747 original size:54 final size:54
Alignment explanation
Indices: 40879689--40879868 Score: 245
Period size: 54 Copynumber: 3.3 Consensus size: 54
40879679 CGATTTGTAG
* * * *
40879689 AATTACCATTTTTCCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAA
* * * *
40879743 AATTACTGTTTTAACCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAA
* * *
40879797 AATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTC-AGTTTAAAA
1 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGA-TTTACAA
40879851 AATTACCGTTTTACCCTC
1 AATTACCGTTTTACCCTC
40879869 AATTGTGAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 109 0.99
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAA
Found at i:40879799 original size:81 final size:81
Alignment explanation
Indices: 40879681--40879868 Score: 277
Period size: 81 Copynumber: 2.3 Consensus size: 81
40879671 AATACCTTCG
* * *
40879681 ATTTGTAGAATTACCATTTTTCCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTACAAAAT
1 ATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAAT
**
40879746 TACTGTTTTAACCTCA
66 TACCATTTTAACCTCA
*
40879762 ATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAAT
1 ATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAAT
*
40879827 TACCATTTTACCCTCA
66 TACCATTTTAACCTCA
* * * *
40879843 GTTTAAAAAATTACCGTTTTACCCTC
1 ATTTATAGAATTACCATTTTACCCTC
40879869 AATTGTGAAA
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 96 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.39
Consensus pattern (81 bp):
ATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAAT
TACCATTTTAACCTCA
Found at i:40879869 original size:27 final size:27
Alignment explanation
Indices: 40879689--40879868 Score: 218
Period size: 27 Copynumber: 6.7 Consensus size: 27
40879679 CGATTTGTAG
* * * *
40879689 AATTACCATTTTTCCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAA
*
40879716 AATTACCGTTTCACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAA
* * * * *
40879743 AATTACTGTTTTAACCTCAATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAA
* *
40879770 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAA
40879797 AATTACCGTTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAA
* *
40879824 AATTACCATTTTACCCTC-AGTTTAAAA
1 AATTACCGTTTTACCCTCGA-TTTACAA
40879851 AATTACCGTTTTACCCTC
1 AATTACCGTTTTACCCTC
40879869 AATTGTGAAA
Statistics
Matches: 131, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.01
27 130 0.99
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAA
Found at i:40879934 original size:27 final size:27
Alignment explanation
Indices: 40879904--40880029 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
40879894 TGTAGGATAG
40879904 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
40879931 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
40879958 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
40879985 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
*
40880012 AATGACCAAAATACCCCT
1 AATTACCAAAATACCCCT
40880030 GATTTACAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.03
27 80 0.92
28 4 0.05
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:40879945 original size:54 final size:54
Alignment explanation
Indices: 40879871--40880026 Score: 163
Period size: 54 Copynumber: 2.9 Consensus size: 54
40879861 TTACCCTCAA
* * *
40879871 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* * ** * *
40879925 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* ** *
40879979 TTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATGACCAAAATACC
1 TTGTGAAATTACCGAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
40880027 CCTGATTTAC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 4 0.05
54 79 0.92
55 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (54 bp):
TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:40880041 original size:81 final size:81
Alignment explanation
Indices: 40879904--40880053 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
40879894 TGTAGGATAG
* * ** *
40879904 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATGACCAAAATACCCCTAGTTTACAAAATTACAGAAA
40879969 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
* *
40879985 AATTACCGAAATA-CCCTCAATTTGTAAAATGACCAAAATACCCCT-GATTTACAAAATTATAGA
1 AATTACCAAAATACCCCT-AATTTGTAAAATGACCAAAATACCCCTAG-TTTACAAAATTACAGA
40880048 AATACC
64 AATACC
40880054 CTTGACTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
80 5 0.08
81 55 0.92
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATGACCAAAATACCCCTAGTTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:40880042 original size:54 final size:55
Alignment explanation
Indices: 40879908--40880055 Score: 167
Period size: 54 Copynumber: 2.7 Consensus size: 55
40879898 GGATAGAATT
* * *
40879908 ACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATT
1 ACCAAAATACCCCTGA-TTTGTAAAATTACCGAAATACCCTCTAATTTGTAAAATG
* * * *
40879962 ACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTC-AATTTGTAAAATG
1 ACCAAAATACCCCTGATTTGTAAAATTACCGAAATACCCTCTAATTTGTAAAATG
** **
40880016 ACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCT
1 ACCAAAATACCCCTGATTTGTAAAATTACCGAAATACCCT
40880056 TGACTTTCTA
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 76 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (55 bp):
ACCAAAATACCCCTGATTTGTAAAATTACCGAAATACCCTCTAATTTGTAAAATG
Found at i:40880050 original size:27 final size:27
Alignment explanation
Indices: 40880020--40880113 Score: 111
Period size: 27 Copynumber: 3.4 Consensus size: 27
40880010 AAAATGACCA
*
40880020 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCCTTGATTTACAAAATTATAG
40880047 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTGA-TTTAC--AAAATTATAG
* *
40880076 AAATACCATTGGTTTACAAAATTACT-G
1 AAATACCCTTGATTTACAAAATTA-TAG
40880103 AAATACCCTTG
1 AAATACCCTTG
40880114 GTTTGTAGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
27 30 0.52
28 7 0.12
29 21 0.36
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGATTTACAAAATTATAG
Found at i:40880267 original size:27 final size:27
Alignment explanation
Indices: 40880123--40880266 Score: 191
Period size: 27 Copynumber: 5.3 Consensus size: 27
40880113 GGTTTGTAGA
*
40880123 TTTACCCTCGATTTATAGAATTACCAT
1 TTTACCCTCGATTTACAGAATTACCAT
*
40880150 TTTACCTTCGATTTACAGAATTACCAT
1 TTTACCCTCGATTTACAGAATTACCAT
* **
40880177 TTTACCCTCGATTTATAGAATTACTGT
1 TTTACCCTCGATTTACAGAATTACCAT
*
40880204 TTTACCCTCGATTTACAAAATTACCAT
1 TTTACCCTCGATTTACAGAATTACCAT
* * *
40880231 TTTACCCTC-AGTTTAAAAAATTATCAT
1 TTTACCCTCGA-TTTACAGAATTACCAT
40880258 TTTACCCTC
1 TTTACCCTC
40880267 AATTGTGAAA
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 103 0.99
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.41
Consensus pattern (27 bp):
TTTACCCTCGATTTACAGAATTACCAT
Found at i:40880332 original size:27 final size:27
Alignment explanation
Indices: 40880302--40880453 Score: 193
Period size: 27 Copynumber: 5.6 Consensus size: 27
40880292 TGTAAGATAG
40880302 AATTACCAAAATACCCTGAGTTTGTAA
1 AATTACCAAAATACCCTGAGTTTGTAA
40880329 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATA-CCCTGAGTTTGTAA
* *
40880356 AATTACCGAAATACCACTG-GTTTGTGA
1 AATTACCAAAATACC-CTGAGTTTGTAA
* *
40880383 AATTACCAAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTGAGTTTGTAA
**
40880410 AATTACCAAAATACCCCTGA-TTTACAA
1 AATTACCAAAATA-CCCTGAGTTTGTAA
*
40880437 AATTACAAAAATACCCT
1 AATTACCAAAATACCCT
40880454 TGACTTTTTA
Statistics
Matches: 110, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.07
27 93 0.85
28 9 0.08
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCTGAGTTTGTAA
Found at i:40880439 original size:81 final size:81
Alignment explanation
Indices: 40880302--40880451 Score: 230
Period size: 81 Copynumber: 1.9 Consensus size: 81
40880292 TGTAAGATAG
* * ** **
40880302 AATTACCAAAATACCCTGAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAAAAA
40880367 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
40880383 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTACAAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAAAA
40880447 ATACC
65 ATACC
40880452 CTTGACTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 61 0.98
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAAAAA
TACCACTGGTTTGTGA
Found at i:40880468 original size:398 final size:398
Alignment explanation
Indices: 40879728--40880483 Score: 1327
Period size: 398 Copynumber: 1.9 Consensus size: 398
40879718 TTACCGTTTC
** *
40879728 ACCCTCGATTTACAAAATTACTGTTTTAACCTCAATTTATAGAATTACCATTTTACCCTCGATTT
1 ACCCTCGATTTACAAAATTACCATTTTAACCTCAATTTACAGAATTACCATTTTACCCTCGATTT
40879793 ACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTAAAAAATTACC
66 ACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTAAAAAATTACC
* *
40879858 GTTTTACCCTCAATTGTGAAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCCTA
131 ATTTTACCCTCAATTGTGAAATTACTGAAATACCCCTGTAAGATAGAATTACCAAAATACCCCTA
40879923 GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGAAAT
196 GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGAAAT
* * *
40879988 TACCGAAATACCCTCAATTTGTAAAATGACCAAAATACCCCTGATTTACAAAATTATAGAAATAC
261 TACCAAAATACCCTCAATTTGTAAAATGACCAAAATACCCCTGATTTACAAAATTACAAAAATAC
40880053 CCTTGACTTTCTAAAAATTATAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTT
326 CCTTGACTTTCTAAAAATTATAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTT
40880118 GTAGATTT
391 GTAGATTT
* * *
40880126 ACCCTCGATTTATAGAATTACCATTTT-ACCTTCGATTTACAGAATTACCATTTTACCCTCGATT
1 ACCCTCGATTTACAAAATTACCATTTTAACC-TCAATTTACAGAATTACCATTTTACCCTCGATT
* * *
40880190 TATAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTAAAAAATTAT
65 TACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTAAAAAATTAC
*
40880255 CATTTTACCCTCAATTGTGAAATTACTGAAATACCCTTGTAAGATAGAATTACCAAAATA-CCCT
130 CATTTTACCCTCAATTGTGAAATTACTGAAATACCCCTGTAAGATAGAATTACCAAAATACCCCT
40880319 GAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGAA
195 -AGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGAA
*
40880384 ATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAAAT
259 ATTACCAAAATACCCTCAATTTGTAAAATGACCAAAATACCCCTGATTTACAAAATTACAAAAAT
*
40880449 ACCCTTGACTTTTTAAAAATTATAGAAATACCATT
324 ACCCTTGACTTTCTAAAAATTATAGAAATACCATT
40880484 TGTAACACCC
Statistics
Matches: 339, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
397 7 0.02
398 332 0.98
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.34
Consensus pattern (398 bp):
ACCCTCGATTTACAAAATTACCATTTTAACCTCAATTTACAGAATTACCATTTTACCCTCGATTT
ACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTAAAAAATTACC
ATTTTACCCTCAATTGTGAAATTACTGAAATACCCCTGTAAGATAGAATTACCAAAATACCCCTA
GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGAAAT
TACCAAAATACCCTCAATTTGTAAAATGACCAAAATACCCCTGATTTACAAAATTACAAAAATAC
CCTTGACTTTCTAAAAATTATAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTT
GTAGATTT
Found at i:40881574 original size:23 final size:23
Alignment explanation
Indices: 40881441--40881611 Score: 216
Period size: 25 Copynumber: 7.1 Consensus size: 23
40881431 ACTAGCCTCT
* *
40881441 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
40881464 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
40881488 TTTATCATAATTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
*
40881513 TTCATCATAACTGGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
*
40881538 TTCATCATAACTGGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
40881563 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
40881586 ATTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
40881609 TTT
1 TTT
40881612 TGCACTTCCT
Statistics
Matches: 133, Mismatches: 10, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
23 47 0.35
24 20 0.15
25 65 0.49
27 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:40881686 original size:20 final size:20
Alignment explanation
Indices: 40881658--40881766 Score: 191
Period size: 20 Copynumber: 5.5 Consensus size: 20
40881648 GCATTTATGA
*
40881658 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
40881678 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
40881698 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
40881718 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
40881738 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
40881758 ACATATCAT
1 ACATATCAT
40881767 ATTTATCAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 84 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:40883041 original size:27 final size:26
Alignment explanation
Indices: 40883011--40883088 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
40883001 AGGCATATTC
40883011 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
40883038 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
40883065 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
40883089 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.09
27 36 0.84
28 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:40883159 original size:27 final size:27
Alignment explanation
Indices: 40883126--40883465 Score: 186
Period size: 27 Copynumber: 12.6 Consensus size: 27
40883116 TTGGTAAATC
*
40883126 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** * *
40883153 TGTAAACCAACGGTATTTCTA-TAATTTT
1 TACAAATCAAGGGTATTTC-AGTAA-TTT
* * *
40883181 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-TCAAGGGTATTTCAGTAATTT
** * ** *
40883209 TGTAAATCAGGGGTATTTTGGTAGTTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** *
40883236 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * **
40883263 CACAAA-CCAGTGGTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCAGTAATTT
**
40883290 TACAAA-CTAAGGGTATTTTGGTAATTT
1 TACAAATC-AAGGGTATTTCAGTAATTT
** *
40883317 TACAAATTGAGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *
40883344 TACAAACCAAGGGTATTTTAGCAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
40883371 TACAGA-CTAGGGTA-TTCTAGTAATTT
1 TACAAATCAAGGGTATTTC-AGTAATTT
** * *** *
40883397 TGTAAATCGAGGGTAAAACAGTAATTC
1 TACAAATCAAGGGTATTTCAGTAATTT
** *** *
40883424 TGTAAATCAAGGGTAAAACAGTAATTC
1 TACAAATCAAGGGTATTTCAGTAATTT
*
40883451 TATAAATCAAGGGTA
1 TACAAATCAAGGGTA
40883466 AAACAGTACT
Statistics
Matches: 251, Mismatches: 52, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
25 2 0.01
26 19 0.08
27 199 0.79
28 17 0.07
29 14 0.06
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCAGTAATTT
Found at i:40883309 original size:81 final size:80
Alignment explanation
Indices: 40883219--40883411 Score: 262
Period size: 81 Copynumber: 2.4 Consensus size: 80
40883209 TGTAAATCAG
* *
40883219 GGGTATTTTGGTAGTTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGTATTTTA
*
40883283 GTAATTTTACAAACTAA
65 GCAATTTTACAAACT-A
* *
40883300 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAG
*
40883365 CAATTTTACAGACTA
66 CAATTTTACAAACTA
* * ** *
40883380 GGGTATTCTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
40883412 AAACAGTAAT
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
80 28 0.28
81 70 0.70
82 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAG
CAATTTTACAAACTA
Found at i:40883466 original size:27 final size:27
Alignment explanation
Indices: 40883389--40883523 Score: 198
Period size: 27 Copynumber: 5.0 Consensus size: 27
40883379 AGGGTATTCT
*
40883389 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
40883416 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
40883443 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
40883470 AGTACTTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
40883497 GGTAATTCAGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
40883524 GGGGGTAAAA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.26
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:40883592 original size:27 final size:27
Alignment explanation
Indices: 40883553--40883628 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
40883543 TGTAAATTGG
** *
40883553 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTACTTAAGTAATTTTACAAATCGAA
* *
40883580 GGTACTTCAGTAATTTTACAAATCGAG
1 GGTACTTAAGTAATTTTACAAATCGAA
* *
40883607 GGTATTTAAGTATTTTTACAAA
1 GGTACTTAAGTAATTTTACAAA
40883629 CTAAGCGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTACTTAAGTAATTTTACAAATCGAA
Found at i:40883650 original size:27 final size:26
Alignment explanation
Indices: 40883562--40883666 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 26
40883552 GGGTACTTTG
* * *
40883562 GTAATTTTACAAGTCGAAGGTACTTCA
1 GTAATTTTACAA-ACTAAGGTATTTCA
* * *
40883589 GTAATTTTACAAATCGAGGGTATTTAA
1 GTAATTTTACAAA-CTAAGGTATTTCA
* *
40883616 GTATTTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACTAAG-GTATTTCA
* *
40883643 GTAATTTTAGTAAACTAAAGTATT
1 GTAATTTTA-CAAACTAAGGTATT
40883667 CTAAACAGGG
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.05
27 53 0.84
28 7 0.11
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (26 bp):
GTAATTTTACAAACTAAGGTATTTCA
Found at i:40885498 original size:25 final size:24
Alignment explanation
Indices: 40885460--40885526 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
40885450 AGGAAGTGCT
* *
40885460 AAAAGGGCTCTGCCCCAATTTACTG
1 AAAAGGGCTTTGCCCCAATTTA-TC
* *
40885485 AAAAGGGCTTTGCCCTAGTTTATC
1 AAAAGGGCTTTGCCCCAATTTATC
*
40885509 AGAAAGGGCTTTACCCCA
1 A-AAAGGGCTTTGCCCCA
40885527 GTTATTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAATTTATC
Found at i:40885542 original size:24 final size:24
Alignment explanation
Indices: 40885460--40885542 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 24
40885450 AGGAAGTGCT
* * * *
40885460 AAAAGGGCTCTGCCCCAATTTACTG
1 AAAAGGGCTTTACCCCAGTTTA-TC
* *
40885485 AAAAGGGCTTTGCCCTAGTTTATC
1 AAAAGGGCTTTACCCCAGTTTATC
*
40885509 AGAAAGGGCTTTACCCCAG-TTATT
1 A-AAAGGGCTTTACCCCAGTTTATC
40885533 AAAAGAGGCT
1 AAAAG-GGCT
40885543 AGGCCTCCAG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
23 4 0.08
24 11 0.22
25 34 0.69
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTACCCCAGTTTATC
Found at i:40885724 original size:42 final size:42
Alignment explanation
Indices: 40885665--40885756 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
40885655 TAGTCTCCCC
40885665 AAATGGGCTTGCATACAT-TCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCT-ATTGACATTACATGTGATATTG
40885707 AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
40885749 AAATGGGC
1 AAATGGGC
40885757 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
Found at i:40885815 original size:31 final size:31
Alignment explanation
Indices: 40885780--40885863 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
40885770 CATTTACAGT
40885780 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
40885811 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
40885842 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
40885864 CCAAGACTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:40887080 original size:31 final size:31
Alignment explanation
Indices: 40887042--40887105 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
40887032 CCTTTTCATA
40887042 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
40887073 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
40887104 TT
1 TT
40887106 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:40887374 original size:23 final size:23
Alignment explanation
Indices: 40887320--40887438 Score: 193
Period size: 23 Copynumber: 5.1 Consensus size: 23
40887310 CCTAGCCTCT
*
40887320 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
40887343 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
40887367 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* **
40887390 TTCAATAACTACGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
40887413 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
40887436 TTT
1 TTT
40887439 TGCACTTCCT
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
23 66 0.75
24 22 0.25
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:40887532 original size:20 final size:20
Alignment explanation
Indices: 40887487--40887533 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
40887477 TTATGAATAC
40887487 ACCATGTGCATATCATACAT
1 ACCATGTGCATATCATACAT
**
40887507 GTCATGTGCATATCATACAT
1 ACCATGTGCATATCATACAT
40887527 ACCATGT
1 ACCATGT
40887534 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (20 bp):
ACCATGTGCATATCATACAT
Found at i:40887612 original size:25 final size:25
Alignment explanation
Indices: 40887570--40887617 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
40887560 ATATTTAAAC
* * *
40887570 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
40887595 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
40887618 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:40891906 original size:31 final size:31
Alignment explanation
Indices: 40891868--40891931 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
40891858 CCTTTTCATA
40891868 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
40891899 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
40891930 TT
1 TT
40891932 ACTGTAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:40892201 original size:23 final size:23
Alignment explanation
Indices: 40892146--40892263 Score: 182
Period size: 23 Copynumber: 5.1 Consensus size: 23
40892136 CCTAGCCTCT
* *
40892146 TTTAATAACTAGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
40892169 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
40892193 TTTAGTAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
40892216 TTCAATAACTGCGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
40892239 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
40892262 TT
1 TT
40892264 GTGCACTTCC
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
23 65 0.76
24 21 0.24
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:40892340 original size:20 final size:20
Alignment explanation
Indices: 40892315--40892379 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
40892305 ATGAATACAC
40892315 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
40892335 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
40892355 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
40892375 CATGT
1 CATGT
40892380 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:40892346 original size:11 final size:11
Alignment explanation
Indices: 40892315--40892368 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
40892305 ATGAATACAC
40892315 CATGTGCATAT
1 CATGTGCATAT
*
40892326 CA--TACATAT
1 CATGTGCATAT
40892335 CATGTGCATAT
1 CATGTGCATAT
* *
40892346 CA--TACATGT
1 CATGTGCATAT
40892355 CATGTGCATAT
1 CATGTGCATAT
40892366 CAT
1 CAT
40892369 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:40892450 original size:25 final size:25
Alignment explanation
Indices: 40892416--40892463 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
40892406 ATATTTAAAC
* *
40892416 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAACGGTCATTTTTA
40892441 CCTAGGGGTAAAACGGTCATTTT
1 CCTAGGGGTAAAACGGTCATTTT
40892464 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGTAAAACGGTCATTTTTA
Found at i:40896611 original size:31 final size:31
Alignment explanation
Indices: 40896573--40896636 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
40896563 CCTTTTCATA
40896573 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
40896604 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
40896635 TT
1 TT
40896637 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:40896947 original size:9 final size:9
Alignment explanation
Indices: 40896933--40896985 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
40896923 ACACCATGTG
40896933 CATATCATA
1 CATATCATA
*
40896942 CATATCATGTG
1 CATATCA--TA
40896953 CATATCATA
1 CATATCATA
*
40896962 CATATCATGTG
1 CATATCA--TA
40896973 CATATCATA
1 CATATCATA
40896982 CATA
1 CATA
40896986 CCATGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:40896952 original size:20 final size:20
Alignment explanation
Indices: 40896927--40896991 Score: 121
Period size: 20 Copynumber: 3.2 Consensus size: 20
40896917 ATGAATACAC
40896927 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
40896947 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
40896967 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
40896987 CATGT
1 CATGT
40896992 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:40896958 original size:11 final size:11
Alignment explanation
Indices: 40896927--40896980 Score: 62
Period size: 11 Copynumber: 5.3 Consensus size: 11
40896917 ATGAATACAC
40896927 CATGTGCATAT
1 CATGTGCATAT
*
40896938 CA--TACATAT
1 CATGTGCATAT
40896947 CATGTGCATAT
1 CATGTGCATAT
*
40896958 CA--TACATAT
1 CATGTGCATAT
40896967 CATGTGCATAT
1 CATGTGCATAT
40896978 CAT
1 CAT
40896981 ACATACCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.46
11 19 0.54
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:40897070 original size:25 final size:25
Alignment explanation
Indices: 40897028--40897075 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
40897018 ATATTTAAAC
* * *
40897028 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
40897053 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
40897076 CATATTGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:40899490 original size:19 final size:18
Alignment explanation
Indices: 40899453--40899496 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
40899443 ATACTTATAG
40899453 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
40899470 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
40899489 TACTAATT
1 TAATAATT
40899497 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Done.